Ribosomal protein S4



Ribosomal protein S4 (RPS4) is one of the 22 proteins which belong to the small subunit of the bacterial ribosome. It binds to the 16S RRNA. Mutations in RPS4 are known to increase translational error frequency. In archaea the protein is named S4E or S4P. In eukaryotes it is named S9. The images at the left and at the right correspond to one representative RPS4, i.e. the crystal structure of Ribosomal protein S4 from Thermus thermophilus (2zm6, chain D).

3D Structures of Ribosomal protein S4
Update June 2011

S4
3kbg – RPS4E – Thermoplasma acidophilum

S4 in small ribosomal subunit
2zm6, 1n36, 1j5e, 3oto - TtRPS4 in 30S ribosomal subunit+THX+16S RRNA – Thermus thermophilus

2vqe, 2vqf, 2uuc, 2e5l, 2uu9, 2uua, 2uub, 3pyn, 3pyq, 3pys, 3pyu - TtRPS4 in 30S ribosomal subunit+16S RRNA+RNA fragment

3kc4 – EcRPS4 in 30S ribosomal subunit - Escherichia coli

3i1m, 3i1o, 3df1, 3df3, 2vho, 2vhp, 2avy, 2aw7, 1pnx - EcRPS4 in 30S ribosomal subunit+16S RRNA

1i94, 1fka - TtRPS4 in 30S ribosomal subunit+16S RRNA

1p87, 1p6g - EcRPS4 in 30S ribosomal subunit+16S RRNA – Cryo-EM

3bbn - RPS4 in 30S ribosomal subunit+16S RRNA – Cryo-EM – spinach

S4 in small + large ribosomal subunit
1ml5 - EcRPS4 in 30S ribosomal subunit+50S ribosomal subunit+THX+chain release factor 2+P-site tRNA+tRNA Phe+mRNA fragment+23S RRNA+5S RRNA+16S RRNA - EM

S4 in small ribosomal subunit+ chain release factor
3mr8, 3ms0 – TtRPS4 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+mRNA+16S RRNA

3d5a, 3d5c - TtRPS4 in 30S ribosomal subunit+THX+chain release factor 1+P-site tRNA+E-site tRNA+mRNA +16S RRNA

2b64 - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 1

2b9m - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA+chain release factor 2

2x9r, 2x9t, 2wh1, 2wh3 - TtRPS4 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+mRNA +16S RRNA

3f1e, 3f1g - TtRPS4 in 30S ribosomal subunit+THX+chain release factor 2+P-site tRNA+E-site tRNA +16S RRNA

S4 in small ribosomal subunit+tRNA+mRNA
2hgi - TtRPS4 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet

2hgp - TtRPS4 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA

2i2p, 2i2u - EcRPS4 in 30S ribosomal subunit+16S RRNA+tRNA Phe+mRNA

2hgr - TtRPS4 in 30S ribosomal subunit+16S RRNA+tRNA Phe+tRNA fMet+mRNA

1yl4 – TtRPS4 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+THRS mRNA operator

1pns - EcRPS4 in 30S ribosomal subunit+ tRNA Phe+16S RRNA+mRNA

1xnq, 1xnr - TtRPS4 in 30S ribosomal subunit+THX+mRNA+tRNA anticodon+16S RRNA

S4 in small ribosomal subunit+A-site tRNA
2uxd, 2uxc - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA CGGG+tRNA anticodon+16S RRNA

1n32, 1n33 - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA fragment+tRNA anticodon+16S RRNA

1n34 - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA fragment +16S RRNA

1xmo, 1xmq - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA+tRNA anticodon+16S RRNA

2uxb - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA GGGU+tRNA anticodon+16S RRNA

S4 in small ribosomal subunit+P-site tRNA
3i8g - TtRPS4 in 30S ribosomal subunit+P-site tRNA+mRNA +16S RRNA

3i8h, 3i9b, 3i9d - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA

1ibk - TtRPS4 in 30S ribosomal subunit+THX+P-site mRNA fragment +16S RRNA

2wwl - EcRPS4 in 30S ribosomal subunit+Poly-Ala chain+P-site tRNA+mRNA +16S RRNA - Escherichia coli

3i1q - EcRPS4 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA

3i1s, 3i1z, 3i21 - EcRPS4 in 30S ribosomal subunit+P-site tRNA hairpin+mRNA +16S RNA

S4 in small ribosomal subunit+A-site tRNA+P-site tRNA
1ibl, 1ibm - TtRPS4 in 30S ribosomal subunit+THX+A-site mRNA fragment+P-site mRNA fragment+tRNA anticodon+16S RRNA

S4 in small ribosomal subunit+P-site tRNA+E-site tRNA
2ow8 - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA+mRNA +16S RRNA

2b9o - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA Phe+E-site tRNA Phe+mRNA +16S RRNA

2qnh - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA

2wdg, 2wdh, 2wdk, 2wdm - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA+E-site tRNA+mRNA +16S RRNA+tRNA Phe

S4 in small ribosomal subunit+A-site tRNA+P-site tRNA+E-site tRNA
2gy9, 2gyb - EcRPS4 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA – Cryo-EM

1jgo, 1jgp, 1jgq, 1gix - TtRPS4 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+tRNA Phe+mRNA +16S RRNA

3e1a, 3e1c - EcRPS4 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA

S4 in small ribosomal subunit + antibiotics
1i95, 1i97, 2hhh, 2f4v, 3oge, 3ogy, 3ohc, 3ohd, 3ohy, 3oi0, 3oi2, 3oi4- TtRPS4 in 30S ribosomal subunit+16S RRNA+antibiotic

1hnw, 1hnx, 1hnz, 1fjg - TtRPS4 in 30S ribosomal subunit+16S RRNA+mRNA fragment+antibiotic

2qbb, 2qb9, 1vs5, 1vs7, 2qan, 2qal, 2qou, 2qow, 2qoy, 2qp0, 2z4k, 2z4m, 3oaq, 3oar, 3ofa, 3ofb, 3ofo, 3ofp, 3ofx, 3ofy, 3or9, 3ora - EcRPS4 in 30S ribosomal subunit+16S RRNA+antibiotic

2j00, 2j02 - TtRPS4 in 30S ribosomal subunit+16S RRNA+paromomycin+P-site tRNA fMet+E-site tRNA Phe+mRNA

3knj, 3knh - TtRPS4 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+viomycin

3knl, 3knm, 3knn - TtRPS4 in 30S ribosomal subunit+P-site tRNA+A-site tRNA+E-site tRNA+mRNA +16S RRNA+capreomycin

S4 in small ribosomal subunit + ribosome recycling factor
2qbd, 2qbf - EcRPS4 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor

3r8n, 3r8o – EcRPS4 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor + mRNA + tRNA

2qbh, 2qbj - EcRPS4 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+gentamicin

2v46, 2v48 - TtRPS4 in 30S ribosomal subunit+16S RRNA+ribosome recycling factor+P-site tRNA Phe+mRNA+tRNA fMet

S4 in small ribosomal subunit + elongation factor
2wri, 2wrk - TtRPS4 in 30S ribosomal subunit+THX+P-site tRNA+mRNA +16S RRNA+elongation factor G

2wrn, 2wrq - TtRPS4 in 30S ribosomal subunit+THX+A-site tRNA+mRNA +16S RRNA+elongation factor TU-4

3fic - TtRPS4 in 30S ribosomal subunit+THX+A-site tRNA+P-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU-A

3izv – EcRPS4 in 30S ribosomal subunit+A/T-site tRNA Phe +16S RRNA+elongation factor TU

3izw – EcRPS4 in 30S ribosomal subunit+A-site tRNA Phe +mRNA +16S RRNA+elongation factor TU

2y0u, 2y0w, 2y0y, 2y10, 2y12, 2y14, 2y16, 2y18 - TtRPS4 in 30S subunit+THX+A-site tRNA+E-site tRNA+mRNA codon+16S RRNA+elongation factor TU

3fih - EcRPS4 in 30S ribosomal subunit+A-site tRNA Phe+P-site tRNA+mRNA +16S RRNA+elongation factor TU

3huw, 3huy - TtRPS4 in 30S ribosomal subunit+THX+tRNA-Met+mRNA +16S RRNA+elongation factor P

1s1h - RPS4 in 40S ribosomal subunit+18S RRNA+elongation factor 2 – Cryo-EM – yeast

S4 in small ribosomal subunit + translation initiation factor
1i96 - TtRPS4 in 30S ribosomal subunit+THX+IF3+16S RRNA

1hr0 - TtRPS4 in 30S ribosomal subunit+THX+IF+16S RRNA

S4 in small ribosomal subunit + various proteins
3kiq, 3kis, 3kiu, 3kix - TtRPS4 in 30S ribosomal subunit+toxin RelE+16S RRNA

1voq, 1vos, 1vov, 1vox, 1voz - EcRPS4 in 30S ribosomal subunit+protein Y+16S RRNA

S4 in small 40S ribosomal subunit + various proteins
3jyv – RPS9 in 40S ribosomal subunit+18S RRNA+P-site tRNA+RACK1 – Cryo-EM

2xzm, 2xzn - RPS4 in 40S subunit+RACK1 - Tetrahymena thermophila

3iz6 – RPS4 in 40S ribosomal subunit+RACK1 - wheat

S4 in part of small ribosomal subunit
1qdj – TtRPS4+TtRPS5+TtRPS6+TtRPS7+TtRPS8+TtRPS15+TtRPS17+TtRPS20+16S RRNA fragment

1c05 – GsRPS4 residues 42-200 – Geobacillus stearothermophilus

1c06 - GsRPS4 residues 42-200 - NMR